miRNA display CGI


Results 1 - 17 of 17 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
21343 3' -55.1 NC_004778.3 + 88600 0.66 0.916947
Target:  5'- aCGGUuuGgcUACacuuGGCAauGUGCAGCa -3'
miRNA:   3'- -GCCAggCauAUG----CCGUguCACGUCGa -5'
21343 3' -55.1 NC_004778.3 + 5096 0.66 0.916947
Target:  5'- cCGGUCUGUGcGCGa-AC-GUGCAGCUc -3'
miRNA:   3'- -GCCAGGCAUaUGCcgUGuCACGUCGA- -5'
21343 3' -55.1 NC_004778.3 + 80610 0.66 0.913386
Target:  5'- aCGGUagUCGUGagcACGuggcacauucguugcGCGCGGUGCGGCUg -3'
miRNA:   3'- -GCCA--GGCAUa--UGC---------------CGUGUCACGUCGA- -5'
21343 3' -55.1 NC_004778.3 + 121394 0.66 0.910962
Target:  5'- gGGUCaCGc---UGGCAC-GUGCGGCUg -3'
miRNA:   3'- gCCAG-GCauauGCCGUGuCACGUCGA- -5'
21343 3' -55.1 NC_004778.3 + 9993 0.66 0.891541
Target:  5'- gCGGUCUccauaUGUACGGCgACGuGuUGCGGCUg -3'
miRNA:   3'- -GCCAGGc----AUAUGCCG-UGU-C-ACGUCGA- -5'
21343 3' -55.1 NC_004778.3 + 1675 0.67 0.877406
Target:  5'- uCGGUuuGgGUGCGGCcaGCAGcGCgAGCa -3'
miRNA:   3'- -GCCAggCaUAUGCCG--UGUCaCG-UCGa -5'
21343 3' -55.1 NC_004778.3 + 4050 0.67 0.877406
Target:  5'- gCGaGUCCagGUcgGCGGCACuGGUGguGUa -3'
miRNA:   3'- -GC-CAGG--CAuaUGCCGUG-UCACguCGa -5'
21343 3' -55.1 NC_004778.3 + 56954 0.67 0.860028
Target:  5'- aCGGUUcaaCGUGUgccgcggcgugaacACGGCGCuggaccuGUGCGGCg -3'
miRNA:   3'- -GCCAG---GCAUA--------------UGCCGUGu------CACGUCGa -5'
21343 3' -55.1 NC_004778.3 + 82697 0.68 0.838192
Target:  5'- aCGGUuuGgacgGUcgucGCgGGCACAgGUGCGGCa -3'
miRNA:   3'- -GCCAggCa---UA----UG-CCGUGU-CACGUCGa -5'
21343 3' -55.1 NC_004778.3 + 73723 0.68 0.794131
Target:  5'- aGG-CCGUGUGuuCGGCgucaccACGGUGUAGCc -3'
miRNA:   3'- gCCaGGCAUAU--GCCG------UGUCACGUCGa -5'
21343 3' -55.1 NC_004778.3 + 32898 0.69 0.784827
Target:  5'- uGG-CCGUGcACGGCGC-GUGCAcGCc -3'
miRNA:   3'- gCCaGGCAUaUGCCGUGuCACGU-CGa -5'
21343 3' -55.1 NC_004778.3 + 116045 0.69 0.765801
Target:  5'- uGGUCCG---GCGuGCGCAuguGUGCGGCc -3'
miRNA:   3'- gCCAGGCauaUGC-CGUGU---CACGUCGa -5'
21343 3' -55.1 NC_004778.3 + 22462 0.69 0.756097
Target:  5'- cCGGUCUGUcUACGGCG-AG-GCGGUUg -3'
miRNA:   3'- -GCCAGGCAuAUGCCGUgUCaCGUCGA- -5'
21343 3' -55.1 NC_004778.3 + 27950 0.7 0.73636
Target:  5'- gCGGcCCGUgcAUGCGGUGCAGcGCgGGCa -3'
miRNA:   3'- -GCCaGGCA--UAUGCCGUGUCaCG-UCGa -5'
21343 3' -55.1 NC_004778.3 + 117831 0.7 0.70607
Target:  5'- cCGGUCC----ACGGCGCAcaGCAGCa -3'
miRNA:   3'- -GCCAGGcauaUGCCGUGUcaCGUCGa -5'
21343 3' -55.1 NC_004778.3 + 119778 0.72 0.591897
Target:  5'- uGGUCCGUAgGCGcCACGGUGCAa-- -3'
miRNA:   3'- gCCAGGCAUaUGCcGUGUCACGUcga -5'
21343 3' -55.1 NC_004778.3 + 110135 1.09 0.00299
Target:  5'- cCGGUCCGUAUACGGCACAGUGCAGCUg -3'
miRNA:   3'- -GCCAGGCAUAUGCCGUGUCACGUCGA- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.